DNase-seq_ENCSR709YRE
DNase-seq ENCSR709YRE [biosample_summary="Homo sapiens T-helper 17 cell male adult (42 years)"]
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| Id: | DNase-seq/ENCSR709YRE |
| Type: | position_score |
| Version: | 0 |
| Summary: |
DNase-seq ENCSR709YRE [biosample_summary="Homo sapiens T-helper 17 cell male adult (42 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (42 years) output_type: peaks audit_warning: Alignment file {ENCFF520CBX|/files/ENCFF520CBX/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 45344668 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq-encode4/}) audit_warning: Signal Portion of Tags (SPOT) is a measure of enrichment, analogous to the commonly used fraction of reads in peaks metric. ENCODE processed alignment files {ENCFF520CBX|/files/ENCFF520CBX/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.35. According to ENCODE standards, SPOT1 score of 0.4 or higher is considered a product of high quality data. Any sample with a SPOT1 score <0.3 should be targeted for replacement with a higher quality sample, and a SPOT1 score of 0.25 is considered minimally acceptable SPOT1 score of 0.25 is considered minimally acceptable for rare and hard to find primary tissues. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq-encode4/}) |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| DNase-seq_ENCSR709YRE | float |
DNase-seq_ENCSR709YRE |
DNase-seq ENCSR709YRE [biosample_summary="Homo sapiens T-helper 17 cell male adult (42 years)"]
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[0.221, 27.8] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF589UWU.bed.gz | 406.84 KB | 57b17eee5811b17f6c2a45a5aea76865 |
| ENCFF589UWU.bed.gz.dvc | 100.0 B | ce2c07fa5ee459b30a80da7a9f83c6a7 |
| ENCFF589UWU.tabix.bed.gz | 368.28 KB | e538f8c4234b791144ac553ac50fda32 |
| ENCFF589UWU.tabix.bed.gz.dvc | 106.0 B | ab1340f47bdc017586663cc926326d90 |
| ENCFF589UWU.tabix.bed.gz.tbi | 199.49 KB | 6a31b032aacd84ba5cf99ff3c0a6667a |
| ENCFF589UWU.tabix.bed.gz.tbi.dvc | 110.0 B | d200dca30aa5cee445d65a90200fad2c |
| genomic_resource.yaml | 2.65 KB | d596ecd2575ea50aa9cbec3756edb005 |
| genomic_resource_original.yaml | 2.55 KB | 4df90766455e880c61d8b9cb8378fbac |
| statistics/ |